# List of top-scoring protein chains for t04-100-30-near-backbone-11 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1tljA 213 1.20e-20 1eqfA 280 4.73e-01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1om4A 422 6.14e-01 d.174.1.1 87067 1qvbA 481 1.41e+00 1qvbA c.1.8.4 28983 1uouA 474 2.33e+00 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 2oatA 439 2.35e+00 2dkb c.67.1.4 34452 1v7oA 165 3.41e+00 unknown_sccs -10249 1gpjA 404 4.12e+00 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1oatA 439 4.84e+00 2dkb c.67.1.4 34461 1b4bA 71 5.36e+00 1b4aA d.74.2.1 39718 1r7aA 504 6.13e+00 b.71.1.1 -4664 c.1.8.1 -5283 1nal1 297 6.58e+00 1nal3 1t7pA 698 6.88e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1hl2A 297 6.90e+00 c.1.10.1 83581 1k5nA 276 7.64e+00 b.1.1.2 77266 d.19.1.1 77267 1gefA 123 7.65e+00 1gefA c.52.1.18 60465 1p36A 164 8.04e+00 d.2.1.3 -8840 1idk 359 8.62e+00 1qcxA b.80.1.2 28025 1lw9A 164 8.71e+00 d.2.1.3 84727 119l 164 9.26e+00 1l92 d.2.1.3 36622 1evhA 112 9.72e+00 1evhA b.55.1.4 26997 1uwsA 489 1.00e+01 1f7uA 607 1.01e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1brwA 433 1.13e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1d0cA 444 1.20e+01 d.174.1.1 64769 1a04A 215 1.23e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1gowA 489 1.35e+01 1qvbA c.1.8.4 28981 1ed5A 444 1.39e+01 1nseA d.174.1.1 42530 1gudA 288 1.40e+01 c.93.1.1 83326 1j6oA 268 1.44e+01 c.1.9.12 77088 1a53 247 1.48e+01 1a53 c.1.2.4 28564 4icb 76 1.51e+01 4icb a.39.1.1 17145 1j09A 468 1.53e+01 a.97.1.1 77025 c.26.1.1 77026 1cr1A 296 1.53e+01 1cr1A c.37.1.11 32286 1pbtA 244 1.54e+01 unknown_sccs -6866 1d1vA 444 1.62e+01 1nseA d.174.1.1 59101 1rtm1 149 1.69e+01 1rtm1 1igs 248 1.77e+01 1a53 c.1.2.4 28565 1qcxA 359 1.80e+01 1qcxA b.80.1.2 28028 1ftrA 296 1.80e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1vc4A 254 1.80e+01 c.1.2.4 -5172 1afb1 154 1.83e+01 1rtm1 1dv1A 449 1.84e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1sz9A 144 1.86e+01 1n62C 288 1.87e+01 d.87.2.1 80094 d.145.1.3 80095 1r5iD 216 2.07e+01 unknown_sccs -1272 1p0yA 444 2.12e+01 a.166.1.1 87654 b.85.7.3 87655 1hh1A 143 2.13e+01 1gefA c.52.1.18 61036 1zymA 258 2.18e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1rj9A 304 2.21e+01 a.24.13.1 -631 c.37.1.10 -7129 1urfA 81 2.25e+01 a.2.6.1 -105 1p1mA 406 2.27e+01 b.92.1.4 87696 c.1.9.9 87697 1o1zA 234 2.32e+01 c.1.18.3 86555 1jipA 403 2.37e+01 a.104.1.1 66748 1bjnA 360 2.44e+01 1bjnA c.67.1.4 34469 1qj2C 285 2.50e+01 1qj2C 1m6yA 301 2.51e+01 a.60.13.1 78716 c.66.1.23 78717 1j6pA 418 2.56e+01 b.92.1.4 77089 c.1.9.9 77090 1fs7A 485 2.63e+01 1qdbA a.138.1.3 19691 1khdA 345 2.67e+01 a.46.2.1 77400 c.27.1.1 77401 1gln 468 2.70e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1oaoC 729 2.77e+01 e.26.1.3 86746 1euaA 213 2.77e+01 1fwrA c.1.10.1 29155 1qwdA 177 2.78e+01 b.60.1.1 -4455 2gsq 202 2.78e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1agjA 242 2.85e+01 1agjA b.47.1.1 25827 1ifrA 121 2.95e+01 b.1.16.1 71203 1rk8A 165 3.00e+01 d.58.7.1 -10018 1fjgJ 105 3.02e+01 1fjfJ d.58.15.1 39330 1gvfA 286 3.04e+01 c.1.10.2 70599 1n45A 233 3.08e+01 a.132.1.1 79981 1qq8A 214 3.12e+01 1qq8A 1l5xA 280 3.27e+01 c.106.1.1 77718 1r1dA 247 3.32e+01 unknown_sccs -8335 1l6sA 323 3.36e+01 c.1.10.3 73627 1rljA 139 3.40e+01 1mg2D 155 3.43e+01 a.3.1.1 79062 1fp2A 352 3.54e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1bgp 309 3.60e+01 1bgp a.93.1.1 18690 1bouB 302 3.63e+01 1bouB c.56.6.1 33859 1i8jA 323 3.69e+01 1b4kA c.1.10.3 61968 1v74A 107 3.81e+01 unknown_sccs -9319 1jx2B 315 3.82e+01 c.37.1.8 67404